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  • Ramesh, VetukuriSwedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för växtbiologi,Department of Plant Biology (author)

Evidence for Small RNAs Homologous to Effector-Encoding Genes and Transposable Elements in the Oomycete Phytophthora infestans

  • Article/chapterEnglish2012

Publisher, publication year, extent ...

  • 2012-12-14
  • Public Library of Science (PLoS),2012
  • printrdacarrier

Numbers

  • LIBRIS-ID:oai:DiVA.org:kth-110059
  • https://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-110059URI
  • https://doi.org/10.1371/journal.pone.0051399DOI
  • https://res.slu.se/id/publ/39723URI
  • https://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-191768URI

Supplementary language notes

  • Language:English
  • Summary in:English

Part of subdatabase

Classification

  • Subject category:ref swepub-contenttype
  • Subject category:art swepub-publicationtype

Notes

  • QC 20130110
  • Phytophthora infestans is the oomycete pathogen responsible for the devastating late blight disease on potato and tomato. There is presently an intense research focus on the role(s) of effectors in promoting late blight disease development. However, little is known about how they are regulated, or how diversity in their expression may be generated among different isolates. Here we present data from investigation of RNA silencing processes, characterized by non-coding small RNA molecules (sRNA) of 19-40 nt. From deep sequencing of sRNAs we have identified sRNAs matching numerous RxLR and Crinkler (CRN) effector protein genes in two isolates differing in pathogenicity. Effector gene-derived sRNAs were present in both isolates, but exhibited marked differences in abundance, especially for CRN effectors. Small RNAs in P. infestans grouped into three clear size classes of 21, 25/26 and 32 nt. Small RNAs from all size classes mapped to RxLR effector genes, but notably 21 nt sRNAs were the predominant size class mapping to CRN effector genes. Some effector genes, such as PiAvr3a, to which sRNAs were found, also exhibited differences in transcript accumulation between the two isolates. The P. infestans genome is rich in transposable elements, and the majority of sRNAs of all size classes mapped to these sequences, predominantly to long terminal repeat (LTR) retrotransposons. RNA silencing of Dicer and Argonaute genes provided evidence that generation of 21 nt sRNAs is Dicer-dependent, while accumulation of longer sRNAs was impacted by silencing of Argonaute genes. Additionally, we identified six microRNA (miRNA) candidates from our sequencing data, their precursor sequences from the genome sequence, and target mRNAs. These miRNA candidates have features characteristic of both plant and metazoan miRNAs.

Subject headings and genre

Added entries (persons, corporate bodies, meetings, titles ...)

  • Åsman, AnnaSwedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för växtbiologi,Department of Plant Biology(Swepub:slu)48014 (author)
  • Tellgren-Roth, ChristianUppsala universitet,Institutionen för immunologi, genetik och patologi,Science for Life Laboratory, SciLifeLab(Swepub:uu)chrte903 (author)
  • Jahan, SultanaSwedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för växtbiologi,Department of Plant Biology(Swepub:slu)50294 (author)
  • Reimegård, JohanKTH,Science for Life Laboratory, SciLifeLab(Swepub:kth)u1dpj2ym (author)
  • Fogelqvist, JohanUppsala universitet,Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för växtbiologi,Department of Plant Biology,Växtekologi och evolution(Swepub:uu)jofog913 (author)
  • Savenkov, EugeneSwedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för växtbiologi,Department of Plant Biology(Swepub:slu)48370 (author)
  • Söderbom, FredrikUppsala universitet,Mikrobiologi(Swepub:uu)fredsbom (author)
  • Avrova, Anna O. (author)
  • Whisson, Stephen C. (author)
  • Dixelius, ChristinaSwedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för växtbiologi,Department of Plant Biology(Swepub:slu)48572 (author)
  • Sveriges lantbruksuniversitetInstitutionen för växtbiologi (creator_code:org_t)
  • Sveriges lantbruksuniversitet

Related titles

  • In:PLOS ONE: Public Library of Science (PLoS)7:12, s. e51399-1932-6203

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